Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016
Porcine epidemic diarrhea virus (PEDV) outbreaks on pig farms have caused significant economic loss in the swine industry since it was first reported in Thailand a decade ago. Anecdotal evidence suggests that PEDV is now endemic in this region, therefore genome information of circulating PEDV is imp...
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PeerJ Inc.
2019-04-01
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| author | Supansa Tuanthap Sompong Vongpunsawad Cherdpong Phupolphan Ausanee Duang-in Suphot Wattanaphansak Pornchalit Assavacheep Apiradee Theamboonlers Supol Luengyosluechakul Alongkorn Amonsin Yong Poovorawan |
| author_facet | Supansa Tuanthap Sompong Vongpunsawad Cherdpong Phupolphan Ausanee Duang-in Suphot Wattanaphansak Pornchalit Assavacheep Apiradee Theamboonlers Supol Luengyosluechakul Alongkorn Amonsin Yong Poovorawan |
| author_sort | Supansa Tuanthap |
| collection | DOAJ |
| description | Porcine epidemic diarrhea virus (PEDV) outbreaks on pig farms have caused significant economic loss in the swine industry since it was first reported in Thailand a decade ago. Anecdotal evidence suggests that PEDV is now endemic in this region, therefore genome information of circulating PEDV is important for molecular surveillance and evaluation of potential benefits of field vaccination. Here, we characterized PEDV infection on commercial Thai swine farms by screening 769 samples of feces and small intestinal contents from pigs with diarrhea between 2011 and 2016. Using reverse-transcription polymerase chain reaction targeting the spike (S) gene, 153 PEDV-positive samples were further subjected to analysis of the open reading frame 3 and nucleocapsid (N) genes. Comparison of 95 samples in which nucleotide sequencing was successfully obtained for all three genes revealed evolutionary diversity among the Thai PEDV strains. Phylogenetic analyses suggest that although some Thai strains changed little from years past, others resembled more closely to the recent strains reported in China. Interestingly, eight Thai PEDV strains possessed amino acid deletions in the N protein. The PEDV sequence divergence may be responsible for driving periodic outbreaks and continued persistence of PEDV on commercial swine farms. Our findings provide important insight into regional PEDV strains in circulation, which may assist future inclusions of suitable strains for future PEDV vaccines. |
| first_indexed | 2024-03-09T06:39:11Z |
| format | Article |
| id | doaj.art-5191d32b71f645a8bd3bd2018ddffa7f |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:39:11Z |
| publishDate | 2019-04-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-5191d32b71f645a8bd3bd2018ddffa7f2023-12-03T10:53:42ZengPeerJ Inc.PeerJ2167-83592019-04-017e684310.7717/peerj.6843Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016Supansa Tuanthap0Sompong Vongpunsawad1Cherdpong Phupolphan2Ausanee Duang-in3Suphot Wattanaphansak4Pornchalit Assavacheep5Apiradee Theamboonlers6Supol Luengyosluechakul7Alongkorn Amonsin8Yong Poovorawan9Interdisciplinary Program of Biomedical Sciences, Graduate School, Chulalongkorn University, Bangkok, ThailandCenter of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, ThailandThe Livestock Animal Hospital, Faculty of Veterinary Science, Chulalongkorn University, Nakhon Pathom, ThailandCenter of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, ThailandDepartment of Veterinary Medicine, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, ThailandDepartment of Veterinary Medicine, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, ThailandCenter of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, ThailandDepartment of Veterinary Medicine, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, ThailandCenter of Excellence for Emerging and Reemerging Infectious Diseases in Animals, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, ThailandCenter of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, ThailandPorcine epidemic diarrhea virus (PEDV) outbreaks on pig farms have caused significant economic loss in the swine industry since it was first reported in Thailand a decade ago. Anecdotal evidence suggests that PEDV is now endemic in this region, therefore genome information of circulating PEDV is important for molecular surveillance and evaluation of potential benefits of field vaccination. Here, we characterized PEDV infection on commercial Thai swine farms by screening 769 samples of feces and small intestinal contents from pigs with diarrhea between 2011 and 2016. Using reverse-transcription polymerase chain reaction targeting the spike (S) gene, 153 PEDV-positive samples were further subjected to analysis of the open reading frame 3 and nucleocapsid (N) genes. Comparison of 95 samples in which nucleotide sequencing was successfully obtained for all three genes revealed evolutionary diversity among the Thai PEDV strains. Phylogenetic analyses suggest that although some Thai strains changed little from years past, others resembled more closely to the recent strains reported in China. Interestingly, eight Thai PEDV strains possessed amino acid deletions in the N protein. The PEDV sequence divergence may be responsible for driving periodic outbreaks and continued persistence of PEDV on commercial swine farms. Our findings provide important insight into regional PEDV strains in circulation, which may assist future inclusions of suitable strains for future PEDV vaccines.https://peerj.com/articles/6843.pdfPigPorcine epidemic diarrhea virusSpikeORF3NucleocapsidThailand |
| spellingShingle | Supansa Tuanthap Sompong Vongpunsawad Cherdpong Phupolphan Ausanee Duang-in Suphot Wattanaphansak Pornchalit Assavacheep Apiradee Theamboonlers Supol Luengyosluechakul Alongkorn Amonsin Yong Poovorawan Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 PeerJ Pig Porcine epidemic diarrhea virus Spike ORF3 Nucleocapsid Thailand |
| title | Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 |
| title_full | Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 |
| title_fullStr | Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 |
| title_full_unstemmed | Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 |
| title_short | Analysis of the spike, ORF3, and nucleocapsid genes of porcine epidemic diarrhea virus circulating on Thai swine farms, 2011–2016 |
| title_sort | analysis of the spike orf3 and nucleocapsid genes of porcine epidemic diarrhea virus circulating on thai swine farms 2011 2016 |
| topic | Pig Porcine epidemic diarrhea virus Spike ORF3 Nucleocapsid Thailand |
| url | https://peerj.com/articles/6843.pdf |
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